Pre-harvest sprouting (PHS) adversely affects wheat quality and yield, and grain color (GC) is associated with PHS resistance.  However, the genetic relationship between GC and PHS resistance remains unclear.  In this study, 168 wheat varieties (lines) with significant differences in GC and PHS resistance were genotyped using an Illumina 90K iSelect SNP array.  Genome-wide association study (GWAS) based on a mixed linear model showed that 67 marker-trait associations (MTAs) assigned to 29 loci, including 17 potentially novel loci, were significantly associated with GC, which explained 1.1–17.0% of the phenotypic variation.  In addition, 100 MTAs belonging to 54 loci, including 31 novel loci, were significantly associated with PHS resistance, which accounted for 1.1–14.7% of the phenotypic variation.  Subsequently, two cleaved amplified polymorphic sequences (CAPS) markers, 2B-448 on chromosome 2B and 5B-301 on chromosome 5B, were developed from the representative SNPs of the major common loci Qgc.ahau-2B.3/Qphs.ahau-2B.4 controlling GC/PHS resistance and PHS resistance locus Qphs.ahau-5B.4, respectively.  Further validation in 171 Chinese mini-core collections confirmed significant correlations of the two CAPS markers with GC and PHS resistance phenotypes under different environments (P<0.05).  Furthermore, the wheat public expression database, transcriptomic sequencing, and gene allelic variation analysis identified TraesCS5B02G545100, which encodes glutaredoxin, as a potential candidate gene linked to Qphs.ahau-5B.4.  The new CAPS marker CAPS-356 was then developed based on the SNP (T/C) in the coding sequences (CDS) region of TraesCS5B02G545100.  The high-density linkage map of the Jing 411/Hongmangchun 21 recombinant inbred lines (RILs) constructed based on specific locus amplified fragment sequencing markers showed that CAPS-356 collocated with a novel QTL for PHS resistance, supporting the role of TraesCS5B02G545100 as the potential candidate gene linked to Qphs.ahau-5B.4.  These results provide valuable information for the map-based cloning of Qphs.ahau-5B.4 and breeding of PHS resistant white-grained varieties.

Calcium (Ca²⁺) plays an important role in determining plant growth and development because it maintains cell wall and
membrane integrity. Therefore, understanding the role of Ca2+ in carbon and lipid metabolism could provide insights
into the dynamic changes in cell membranes and cell walls during the rapid elongation of cotton fibers. In the present
study, we found that the lack of Ca²⁺ promoted fiber elongation and rapid ovule expansion, but it also caused tissue
browning in the ovule culture system. RNA-sequencing revealed that Ca²⁺ deficiency induced cells to be highly oxidized,
and the expression of genes related to carbon metabolism and lipid metabolism was activated significantly. All gene
members of nine key enzymes involved in glycolysis were up-regulated, and glucose was significantly reduced in Ca²⁺
deficiency-treated tissues. Ca²⁺ deficiency adjusted the flowing of glycolysis metabolic. However, low K⁺ recovered
the expression levels of glycolysis genes and glucose content caused by Ca2+ deficiency. Electrospray ionizationtandem
mass spectrometry technology was applied to uncover the dynamic profile of lipidome under Ca²⁺ and K⁺
interacted conditions. Ca²⁺ deficiency led to the decrease of fatty acid (FA), diacylglycerol (DAG), glycolipid and the
significant increase of triacylglycerol (TAG), phospholipid phosphatidylethanolamine (PE), phosphatidylglycerol (PG),
and PC (phosphatidylcholine). Low K⁺ restored the contents of FA, phospholipids, and glycolipids, effectively relieved
the symptoms caused by Ca²⁺ deficiency, and recovered the development of fiber cells. This study revealed dynamic
changes in transcript and metabolic levels and uncovered the signaling interaction of Ca²⁺ deficiency and low K⁺ in
glycolysis and lipid metabolism during fiber development.

Phosphorus (P) leaching is a major problem in greenhouse vegetable production with excessive P fertilizer application.  Substitution of inorganic P fertilizer with organic fertilizer is considered a potential strategy to reduce leaching, but the effect of organic material addition on soil P transformation and leaching loss remains unclear.  The X-ray absorption near-edge structure (XANES) spectroscopy technique can determine P speciation at the molecular level.  Here, we integrated XANES and chemical methods to explore P speciation and transformation in a 10-year field experiment with four treatments: 100% chemical fertilizer (4CN), 50% chemical N and 50% manure N (2CN+2MN), 50% chemical N and 50% straw N (2CN+2SN), and 50% chemical N and 25% manure N plus 25% straw N (2CN+2MSN).  Compared with the 4CN treatment, the organic substitution treatments increased the content of labile P by 13.7–54.2% in the 0–40 cm soil layers, with newberyite and brushite being the main constituents of the labile P.  Organic substitution treatments decreased the stable P content; hydroxyapatite was the main species and showed an increasing trend with increasing soil depth.  Straw addition (2CN+2SN and 2CN+2MSN) resulted in a higher moderately labile P content and a lower labile P content in the subsoil (60–100 cm).  Moreover, straw addition significantly reduced the concentrations and amounts of total P, dissolved inorganic P (DIP), and particulate P in leachate.  DIP was the main form transferred by leaching and co-migrated with dissolved organic carbon.  Partial least squares path modeling revealed that straw addition decreased P leaching by decreasing labile P and increasing moderately labile P in the subsoil.  Overall, straw addition is beneficial for developing sustainable P management strategies due to increasing labile P in the upper soil layer for the utilization of plants, and decreasing P migration and leaching.

Partial substitution of chemical fertilizers by organic amendments is adopted widely for promoting the availability of soil phosphorus (P) in agricultural production.  However, few studies have comprehensively evaluated the effects of long-term organic substitution on soil P availability and microbial activity in greenhouse vegetable fields.  A 10-year (2009–2019) field experiment was carried out to investigate the impacts of organic fertilizer substitution on soil P pools, phosphatase activities and the microbial community, and identify factors that regulate these soil P transformation characteristics.  Four treatments included 100% chemical N fertilizer (4CN), 50% substitution of chemical N by manure (2CN+2MN), straw (2CN+2SN), and combined manure with straw (2CN+1MN+1SN).  Compared with the 4CN treatment, organic substitution treatments increased celery and tomato yields by 6.9−13.8% and 8.6−18.1%, respectively, with the highest yields being in the 2CN+1MN+1SN treatment.  After 10 years of fertilization, organic substitution treatments reduced total P and inorganic P accumulation, increased the concentrations of available P, organic P, and microbial biomass P, and promoted phosphatase activities (alkaline and acid phosphomonoesterase, phosphodiesterase, and phytase) and microbial growth in comparison with the 4CN treatment.  Further, organic substitution treatments significantly increased soil C/P, and the partial least squares path model (PLS-PM) revealed that the soil C/P ratio directly and significantly affected phosphatase activities and the microbial biomass and positively influenced soil P pools and vegetable yield.  Partial least squares (PLS) regression demonstrated that arbuscular mycorrhizal fungi positively affected phosphatase activities.  Our results suggest that organic fertilizer substitution can promote soil P transformation and availability.  Combining manure with straw was more effective than applying these materials separately for developing sustainable P management practices. 

Agaricus bisporus is one of the most widely cultivated mushrooms in the world. Commercial cultivars are usually phenotypically alike and easy to be copied by isolating tissue cultures. This brings great challenges to distinguish different cultivars and to protect new varieties. Thus, techniques for the accurate identification of cultivars are essentially required. In this study, we accurately identified 11 commercial cultivars of A. bisporus released in China by using microsatellite (SSR, simple sequence repeat) markers. SSR markers were developed by mining the genome sequence. A total of 3 134 SSRs were identified, of which 1 490 SSRs were distributed in gene models, and 1 644 in the intergenic regions. A total of 17 polymorphic primer pairs were developed and SSR fingerprints were constructed for all the commercial cultivars. These SSR markers generated a total of 73 alleles, with an average of 4.29 per locus. Specifically, the primer combination of AB_SSR_2341 and AB_SSR_2590 could distinguish all the 11 commercial cultivars. The similarity coefficients of the 11 commercial cultivars were between 0.56 and 0.95 indicating that some of them were close related. Our results provide an efficient technique for the identification of A. bisporus cultivars in China, which can also facilitate the marker-assisted breeding in the future.

H9 subtype avian influenza virus (AIV) and infectious bronchitis virus (IBV) are major pathogens circulating in poultry and have resulted in great economic losses due to respiratory disease and reduced egg production. As similar symptoms are elicited by the two pathogens, it is difficult for their differential diagnosis. So far, no reverse transcription-polymerase chain reaction (RT-PCR) assay has been found to differentiate between H9 AIV and IBV in one reaction. Therefore, developing a sensitive and specific method is of importance to simultaneously detect and differentiate H9 AIV and IBV. In this study, a duplex RT-PCR (dRT-PCR) was established. Two primer sets target the hemagglutinin (HA) gene of H9 AIV and the nucleocapsid (N) gene of IBV, respectively. Specific PCR products were obtained from all tested H9 AIVs and IBVs belonging to the major clades circulating in China, but not from AIVs of other subtypes or other in·fectious avian viruses. The sensitivity of the dRT-PCR assay corresponding to H9 AIV, IBV and mixture of H9 AIV and IBV were at a concentration of 1×10¹, 1.5×10¹ and 1.5×10¹ 50% egg infective doses (EID50) mL^–1, respectively. The concordance rates between the dRT-PCR and virus isolation were 99.1 and 98.2%, respectively, for detection of samples from H9N2 AIV or IBV infected chickens, while the concordance rate was 99.1% for detection of samples from H9N2 AIV and IBV co-infected chickens. Thus, the dRT-PCR assay reported herein is specific and sensitive, and suitable for the differential diagnosis of clinical infections and surveillance of H9 AIVs and IBVs.

    To investigate the genetic diversity of an edible fungus Pleurotus ferulae, a total of 89 wild samples collected from six geographical locations in the Xinjiang Uygur Autonomous Region of China and two geographical locations in Italy, were analyzed using three DNA fragments including the translation elongation factor (EF1α), the second largest subunit of the RNA polymerase II (RPB2) and the largest subunit of the RNA polymerase II (RPB1). The results indicated relatively abundant genetic variability in the wild resources of P. ferulae. The analysis of molecular variance (AMOVA) showed that the vast majority of the genetic variation was found within geographical populations. Both the Chinese populations and the Italian populations of P. ferulae displayed a limited genetic differentiation. The degree of differentiation between the Chinese populations and the Italian populations was obviously higher than that between the populations from the same region, and moreover the genetic differentiation among all the tested populations was correlated to the geographical distance. The phylogeny analyses confirmed that samples from China and Italy belonged to another genetic group separated from Pleurotus eryngii. They were closely related to each other but were clustered according to their geographical origins, which implied the Chinese populations were highly differentiated from the Italian populations because of distance isolation, and the two populations from different regions might be still in the process of allopatric divergence.

Organic manure application is an important measure for high yield and good quality vegetable production, whereas organic manure is also a main source of residual antibiotic in soils. A 3-yr experiment was conducted on a fluvo-aguic soil in Tianjin of northern China. The objective of this study was to investigate the effects of different fertilization patterns on yield of six-season vegetables with celery and tomato rotation, and dynamic change of tetracyclines residues in the soil during the sixth growing season (tomato season). The field experiment comprised six treatments depending on the proportion of nitrogen of each type of fertilizer: 4/4 CN (CN, nitrogen in chemical fertilizer), 3/4 CN+1/4 MN (MN, nitrogen in pig manure), 2/4 CN+2/4 MN, 1/4 CN+3/4 MN, 2/4 CN+1/4 MN+1/4 SN (SN, nitrogen in corn straw), and CF (conventional fertilization, the amounts of nitrogen application were 943 and 912 kg N ha–1 for celery and tomato season, respectively). In addition to CF treatment, the amount of nitrogen application in other treatments was greatly reduced and equal (450 and 450 kg N ha–1 for celery and tomato season, respectively). Results showed that the combined application of 3/4 CN+1/4 MN achieved the highest yield and economic benefit in the first four seasons, but addition of straw (2/4 CN+1/4 MN+1/4 SN treatment) performed better in the subsequent two seasons, and the average yields of 2/4 CN+1/4 MN+1/4 SN treatment were respectively higher by 9.9 and 12.8% than those of 4/4 CN treatment, and by 5.6 and 10.5% than those of CF treatment. The residual chlortetracycline (CTC) in manure-amended soil for three consecutive years increased along with the increase of applied amount of pig manure. Under the same amount of pig manure application, content of CTC in straw-amended soil was obviously decreased compared with no straw-amended soil (3/4 CN+1/4 MN treatment), and averagely decreased by 41.9% for four sampling periods in the sixth season. Addition of crop straw facilitated the degradation of CTC in manure-amended soil. As a whole, the conventional fertilization was not the desirable pattern based on yield, economic benefit and environment, the optimal fertilization pattern with the highest yield and profit and the least soil chlortetracycline residue was the treatment of 2/4 CN+1/4 MN+1/4 SN under this experimental condition.